{%extends "base.html"%} {%from "flash_messages.html" import flash_all_messages%} {%block title%}Home{%endblock%} {%block pagetitle%}Home{%endblock%} {%block contents%} <div class="row"> {{flash_all_messages()}} <div class="explainer"> <p>Welcome to the <strong>GeneNetwork Data Upload and Quality Control System</strong>.</p> <p>This tool helps you prepare and upload research data to GeneNetwork for analysis.</p> <h2 class="heading">Getting Started</h2> <p>The sections below explain the features of the system. Review this guide to learn how to use the system.</p> {%block extrapageinfo%}{%endblock%} <h3 class="subheading">Species</h3> <p>GeneNetwork supports genetic studies across multiple species (e.g. mice [Mus musculus], human [homo sapiens], rats [Rattus norvegicus], etc.) . Here you can:</p> <ul> <li>View all species that are currently supported</li> <li>Add new species not yet in the system</li> </ul> <h3 class="subheading">Populations</h3> <p>A "population" refers to a specific subgroup within a species that you’re studying (e.g., BXD mice). Here you can:</p> <ul> <li>View the populations that exist for a selected species</li> <li>Add new populations of study for a selected species</li> </ul> <h3 class="subheading">Samples</h3> <p>Manage individual specimens or cases used in your experiments. These include:</p> <ul> <li>Experimental subjects</li> <li>Data sources (e.g., tissue samples, clinical cases)</li> <li>Strain means (instead of entering multiple BXD1 individuals, for example, the mean would be entered for a single BXD1 strain)</li> </ul> <h3 class="subheading">Genotype Data</h3> <p>Upload and review genetic markers and allele encodings for your population. Key details:</p> <ul> <li>Markers are species-level (e.g., mouse SNP databases).</li> <li>Allele data is population-specific (tied to your experimental samples).</li> </ul> <p><strong>Requirement</strong>: Samples must already have been registered in the system before uploading genotype data.</p> <h3 class="subheading">Phenotype Data</h3> <p>Phenotypes are the visible traits or features of a living thing. For example, phenotypes include:</p> <ul> <li>Weight</li> <li>Height</li> <li>Color (such as the color of fur or eyes)</li> </ul> <p>This part of the system will allow you to upload and manage the values for different phenotypes from various samples in your studies.</p> <!-- <h3 class="subheading">Expression Data</h3> <p class="text-danger"> <span class="glyphicon glyphicon-exclamation-sign"></span> <strong>TODO</strong>: Document this …</p> <h3 class="subheading">Individual Data</h3> <p class="text-danger"> <span class="glyphicon glyphicon-exclamation-sign"></span> <strong>TODO</strong>: Document this …</p> <h3 class="subheading">RNA-Seq Data</h3> <p class="text-danger"> <span class="glyphicon glyphicon-exclamation-sign"></span> <strong>TODO</strong>: Document this …</p> </div> --> </div> {%endblock%}